BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.0100.p (294 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311926|ref|YP_003776018.1| glycerol-3-phosphate ABC transp... 565 e-162 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 225 3e-60 gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease ... 102 4e-23 gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease ... 97 2e-21 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 91 1e-19 >gi|300311926|ref|YP_003776018.1| glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 565 bits (1456), Expect = e-162, Method: Compositional matrix adjust. Identities = 291/294 (98%), Positives = 291/294 (98%) Query: 1 MDARPAFPARWFPLLLATPQMLIVFLFFLWPAVKAIAWSFYLVRPFGNGSRFVGLDNYLR 60 MDARPAFP RWFPLLLATPQMLIVFLFFLWPAVKAIAWSFYLVRPFGNGSRFVGLDNYLR Sbjct: 1 MDARPAFPTRWFPLLLATPQMLIVFLFFLWPAVKAIAWSFYLVRPFGNGSRFVGLDNYLR 60 Query: 61 ILTDDSFYASLRATLVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVAGVV 120 ILTDDSFYASLRATLVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVAGVV Sbjct: 61 ILTDDSFYASLRATLVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVAGVV 120 Query: 121 VGIVLKVLINPVTGLLAFLNQFWPGVWAPHLIGAQAMLALIAAFAWTQVPLNFILFSAAL 180 VGIVLKVLINPVTGLLAFLNQ WPGVWAPHLIGAQAMLALIAAFAWTQVPLNFILFSAAL Sbjct: 121 VGIVLKVLINPVTGLLAFLNQLWPGVWAPHLIGAQAMLALIAAFAWTQVPLNFILFSAAL 180 Query: 181 QRIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDALTQGG 240 QRIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDALTQGG Sbjct: 181 QRIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDALTQGG 240 Query: 241 PGRSTAILAYQIYSDGFIGLDLSGSSALSVVLMLFIVALTLLQLRFFRQGEGRW 294 PGRSTAILAYQIYSDGFIGLDLSGSSALSVVLMLFIVALTLLQLRFFRQG GRW Sbjct: 241 PGRSTAILAYQIYSDGFIGLDLSGSSALSVVLMLFIVALTLLQLRFFRQGAGRW 294 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 225 bits (574), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 120/290 (41%), Positives = 174/290 (60%), Gaps = 2/290 (0%) Query: 1 MDARPAFPARWFPLLLATPQMLIVFLFFLWPAVKAIAWSFYLVRPFGNGSRFVGLDNYLR 60 M+ R F ++W P LL PQ++I LFF WPAV+A+ S L FG S FV DN+ Sbjct: 1 MEKRARFTSKWLPYLLVAPQIIITLLFFFWPAVQALYQSMLLQDAFGGYSEFVWFDNFKT 60 Query: 61 ILTDDSFYASLRATLVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVAGVV 120 + D ++ S R T +F+A + ++L LA + R + ++ IWPYAV+ VV Sbjct: 61 LFGDPTYLESFRTTAIFSALVAFFGLALSLLLAVFADRVRRGASIYKTFLIWPYAVSPVV 120 Query: 121 VGIVLKVLINPVTGLLAFLNQFWPGV-WAPHLIGAQAMLALIAAFAWTQVPLNFILFSAA 179 VG++ L++P G+L+ + W G+ W + G AM+ ++ A W Q+ NF+ F A Sbjct: 121 VGVLWMFLLSPSLGILSHVLS-WLGLPWDYMINGTHAMILIVIAAIWKQISYNFLFFLAG 179 Query: 180 LQRIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDALTQG 239 LQ IP L+ AAAIDGAGP +RF I P+I+P V+NV+ AF F +VDA T G Sbjct: 180 LQSIPKSLIEAAAIDGAGPVKRFFTIVFPLISPTTFFLFVVNVVYAFFDTFVIVDATTHG 239 Query: 240 GPGRSTAILAYQIYSDGFIGLDLSGSSALSVVLMLFIVALTLLQLRFFRQ 289 GPG+ T IL Y+++SDGF G DL GS+A SVVLM ++ LT++Q ++ + Sbjct: 240 GPGKDTEILVYKVFSDGFKGGDLGGSAAQSVVLMALVILLTVVQFKYVEK 289 >gi|300309613|ref|YP_003773705.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 311 Score = 102 bits (254), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 85/278 (30%), Positives = 137/278 (49%), Gaps = 16/278 (5%) Query: 19 PQMLIVFLFFLWPAVKAIAWSFY----LVRPFGNGSRFVGLDNYLRILTDDSFYASLRAT 74 P ++ ++ L+P + I SF+ + P RFVGL NY+ + +FY +L+ Sbjct: 44 PACVMTLVYVLYPILYTIYLSFFSWDGMTEP-----RFVGLANYVELFHAPTFYTALKNN 98 Query: 75 LVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVAGVVVGIVLKVLINPVTG 134 +++ LLA + LA+A L V R+++S+F P+ ++GVVVG++ +P G Sbjct: 99 VLWLL-MFLLAPPMGLAIALYLNQKVIGMRVVKSLFFAPFVLSGVVVGLMYSWFYDPSFG 157 Query: 135 LLAFLNQFWPGVWAPHLIGAQ-AMLALIAAFAWTQVPLNFILFSAALQRIPADLMGAAAI 193 LL+ L F GV P L A+ A +I A W Q ILF L + D + AA + Sbjct: 158 LLSLL--FGQGV--PVLGDARYATFGIIFAALWPQTAYCMILFLTGLTALNHDQVEAARM 213 Query: 194 DGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDALTQGGPGRSTAILAYQIY 253 +GA W + LP + +A V+++I A F L+ +T GGP S+ +LAY Y Sbjct: 214 EGAKGWTMLRYVILPQLRSTTFMAFVVSIIGAL-RSFDLISVMTSGGPYESSTVLAYYAY 272 Query: 254 SDGFIGLDLSGSSALSVVLMLFIVALTLLQLRFFRQGE 291 S+A++V L ++ + QLR + E Sbjct: 273 DQAIKYYRQGYSAAVAVTLFAIMLVYIVYQLRRMLRAE 310 >gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 96.7 bits (239), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 82/271 (30%), Positives = 133/271 (49%), Gaps = 9/271 (3%) Query: 2 DARPAFPARWFPL-LLATPQMLIVFLFFLWPAVKAIAWS---FYLVRPFGNGSRFVGLDN 57 P R+ P+ L+ TP +LI+ + + P I +S + L+ P G FVGL+N Sbjct: 28 QTSPPRKERFNPIRLMQTPSVLILLAWMIVPLAMTIYFSVNRYNLMAPDQTG--FVGLEN 85 Query: 58 YLRILTDDSFYASLRATLVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVA 117 Y +L D +F+ S+ T + ++V LA + R + + R + I P+ V Sbjct: 86 YAFLLQDPAFWPSIGNTALLIGSVLAISVIGGTLLAVLFDQPFRGRGIARLLVIGPFFVM 145 Query: 118 GVVVGIVLKVLI-NPVTGLLAFLNQFWPGVWAPHLIGAQAMLALIAAFAWTQVPLNFILF 176 V ++ K +I +PV G+LA++ + G+ + ML++I AW +P F++ Sbjct: 146 PTVAALIWKNMIMHPVYGILAYVMRHL-GLEPIDWLAEYPMLSVIIIVAWQWIPFAFLIL 204 Query: 177 SAALQRIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDAL 236 ALQ + D AA +DGAGP R F I LP + A+ + +I I + F + Sbjct: 205 LTALQSLDTDQKEAAQLDGAGPVRIFFYIVLPHLKRAITVVIMIETIFLLSV-FAEIFTT 263 Query: 237 TQGGPGRSTAILAYQIYSDGFIGLDLSGSSA 267 T GGPG +T L + +YS G D+ +SA Sbjct: 264 TAGGPGTATTNLTFLVYSIGLQQFDIGIASA 294 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 90.9 bits (224), Expect = 1e-19, Method: Compositional matrix adjust. Identities = 83/297 (27%), Positives = 136/297 (45%), Gaps = 28/297 (9%) Query: 14 LLLATPQMLIVFLFFLWPAVKAIAWSFYLVRPFGNGSRFVGLDNYLRILTDDSFYASLRA 73 +L P ++++ +F +P I F + G GS F+GLDN+ + D SL Sbjct: 14 MLFMAPAVILLVVFLTYPLGLGIWLGFTDTKIGGEGS-FIGLDNFTYLAGDSLAQLSLFN 72 Query: 74 TLVFTAGSTLLAVTIALALAACLELDVRAKRLLRSIFIWPYAVAGVVVGIVLKVLINPVT 133 T+ +T +++L + L LA L +V K R+I + P+ V + + L + Sbjct: 73 TVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRAIVLLPWIVPTALSALAFWWLYDA-- 130 Query: 134 GLLAFLNQFWPGVWAPHLIGA------------QAMLALIAAFAWTQVPLNFILFSAALQ 181 QF WA H +G A + + A W +P I A LQ Sbjct: 131 -------QFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANVWRGIPFVAISLLAGLQ 183 Query: 182 RIPADLMGAAAIDGAGPWRRFIDIQLPMIAPALLLAGVINVIEAFTHGFGLVDALTQGGP 241 I L AAAIDGA PW++F + LP++ P + + +V+ FT F L+ LT+GGP Sbjct: 184 TISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFTFTD-FQLIYVLTRGGP 242 Query: 242 GRSTAILAYQIYSDGFIGLDLSGSSALSVVLMLFIVALTL-----LQLRFFRQGEGR 293 +T ++A + G L +AL+ ++ F++A + LQ R ++QG + Sbjct: 243 LNATHLMATLSFQRAIPGGALGEGAALATYMIPFLLAAIMFSYFGLQRRGWQQGGDK 299 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.331 0.144 0.455 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 845,798 Number of extensions: 33760 Number of successful extensions: 168 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 12 Length of query: 294 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 210 Effective length of database: 1,222,130 Effective search space: 256647300 Effective search space used: 256647300 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 130 (54.7 bits)